Variant report

Variant	rs56984848
Chromosome Location	chr6:164117392-164117393
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:164117022..164118713-chr6:164126097..164128591,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs57235208	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57308664	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57456277	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57524107	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57770616	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58214854	0.91[AFR][1000 genomes]
rs59039271	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60755658	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73236460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73236470	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241724	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241725	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241734	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241742	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241743	1.00[AFR][1000 genomes]
rs73241745	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241748	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241750	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241752	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241755	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73241765	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018860	chr6:163939347-164532579	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538526	chr6:163939347-164532579	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	esv2758092	chr6:163992064-164161903	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	esv2759490	chr6:163992064-164161903	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv1019107	chr6:164056423-164144164	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1025171	chr6:164113981-164170027	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:164116000-164119800	Enhancers	GM12878-XiMat	blood
2	chr6:164116400-164117800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr6:164116400-164119000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr6:164116600-164117400	Enhancers	Gastric	stomach
5	chr6:164116600-164117600	Enhancers	Pancreas	Pancrea
6	chr6:164116600-164120000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr6:164116800-164118400	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr6:164117000-164117400	Bivalent Enhancer	HepG2	liver
9	chr6:164117200-164117400	Enhancers	Lung	lung
10	chr6:164117200-164117400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
11	chr6:164117200-164117600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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